Resolve Issue #1

I removed four test units that are no longer valid according to the
recent code. In addition, I updated the ModelIOManager to skip reading
lines for any invalid mapping string.
Merge remote-tracking branch 'refs/remotes/origin/develop' into develop
clean uncessary files
Move the test and build scripts to its own folder.
Merge branch 'release/1.8' into develop
Merge remote-tracking branch 'refs/remotes/origin/develop' into develop
mergin changes from trunk
updating to latest trunk
Added ignores for protege 4
merged all changes from origin.develop
fix query strings, missing spaces
Fix the spacing in the completeness test queries.
fix query strings, missing spaces
Improved Exception message when cannot read .obda file due to
unsupported tags
* Improved the factory method that creates CQIE with anew more onvineint
method that doesn't require to create lists everytime you creata query
body.
* Fixed issue that we geenrated Join(...) atoms when not needed. Now
Join is only used in the context of the left or irght ocmponents of a
leftJoin. Everywhere else, Join is redundant and no longer produced.
Merge remote-tracking branch 'origin/developSesame2.7' into developSesame2.7
update dependencies organization, update version for sesame, owlapi
sesame 2.7.3 repoconnection transaction and rio parser change
parent dependency management change